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Jan Philipp Kreysing

@jpkreysing.bsky.social
501 followers 285 following 35 posts

in cell cryo-ET and image processing enthusiast #teamtomo Postdoc in Martin Beck's group (@becklab.bsky.social) at the Max Planck Institute of Biophysics (@mpibp.bsky.social)

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Reposted by Jan Philipp Kreysing
SBGrid Consortium @sbgrid.bsky.social · 07/09/2026
Our software webinar series will resume in October with Beata Turoňová, Group Leader at the @mpibp.bsky.social, introducing cryoCAT. Until then, you can catch up on webinars you missed from our last series on the SBGrid YouTube channel. More here: buff.ly/p1w3J7S #SBGrid #Webinars
youtube.com
SBGrid Consortium
For structural biologists, by structural biologists! The SBGrid TV channel was developed with participation from many members of the structural biology community. We welcome suggestions for topics to…
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Jan Philipp Kreysing @jpkreysing.bsky.social · 13/07/2026
Delighted that our story on chromatin architecture inside human cells is now published — the last chapter of my PhD. It was a pleasure working with @sergiocruzleon.bsky.social, @johannesbetz.bsky.social, and everyone involved. #teamtomo www.nature.com/articles/s41...
nature.com
Molecular architecture of heterochromatin at the nuclear periphery of primary human cells - Nature Communications
The 3D organisation of chromatin inside a human cell is still not fully resolved. Here the authors reveal that in situ cryo-ET resolves individual nucleosomes and predicts DNA linkers, thus showing th...
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Jan Philipp Kreysing @jpkreysing.bsky.social · 29/05/2026
PhD: defended ✅🎉 My work used in situ cryo-ET #teamtomo to investigate cellular machines from ribosome translation and HIV capsid at the nuclear pore to membrane association of vault, and the molecular architecture of heterochromatin. Huge thanks to @becklab.bsky.social. What a wonderful ride!
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Markus Schreiber @ms314.bsky.social · 28/05/2026
We have published a review on how contextual information can complement and enhance research using #cryoET . www.sciencedirect.com/science/arti...
sciencedirect.com
Context matters: A view on metadata analysis in cryo-electron tomography
Cryo-electron tomography (cryo-ET) enables the analysis of biological samples in situ, revealing the complex interplay that shapes (sub)cellular archi…
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Reposted by Jan Philipp Kreysing
Dimitry Tegunov @dtegunov.bsky.social · 03/05/2026
We're super excited to share MissAlignment: a new ML-based approach to reference-free tilt series alignment, spearheaded by @martenchaillet.bsky.social. We think it's going to make your cryo-ET life a lot better. Preprint: www.biorxiv.org/content/10.6... Code: github.com/warpem/miss-... 🧶 Thread:
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Reposted by Jan Philipp Kreysing
Katharina Geißler @kgeissler.bsky.social · 21/04/2026
Out now in Nature Communications! We show that Dictyostelium vaults associate with ER and NE membranes in situ and encapsulate ribosomes with defined orientations, shining new light on their cellular function! #TeamTomo #TeamMassSpec #ProtistsOnSky www.nature.com/articles/s41...
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Katharina Geißler @kgeissler.bsky.social · 22/02/2026
Updated architectural model of the NPC from our lab, starred by bsky-less Agnieszka Obarska-Kosińska. Using cryo ET, XL-MS and modeling, we identify novel nucleoporins, among those the mRNA export complex TREX-2! Check out the preprint on biorxiv #TeamMassSpec #TeamTomo
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Reposted by Jan Philipp Kreysing
Max Planck Institute of Biophysics @mpibp.bsky.social · 12/02/2026
Ready to TANGO? 💃 In our new publication, Beata Turoňová & Markus Schreiber (@ms314.bsky.social, @becklab.bsky.social) present TANGO: the first cryoET framework to analyze the relation between particle positions and orientations 🪩 All in a single user-friendly package! #CryoET #OpenScience
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Wilfling Lab @wilflinglab.bsky.social · 13/01/2026
We are excited to share our new preprint which is now available to read on biorXiv: doi.org/10.64898/202... 🎉🎉🎉
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Jan Philipp Kreysing @jpkreysing.bsky.social · 16/12/2025
#teamtomo strikes again! Check out our new preprint on the enigmatic vault and its newly discovered association with membranes in situ.
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Reposted by Jan Philipp Kreysing
Thorsten Müller @thmllr.bsky.social · 04/12/2025
New paper out! How can we force HIV genomes out of their capsid shells and what can we learn about HIV biology doing so? Hint: capsid inhibitors actively re-route nuclear HIV complexes, and expose genomes via intriguing structural effects! open access: link.springer.com/article/10.1... read below
link.springer.com
Lenacapavir-induced capsid damage uncovers HIV-1 genomes emanating from nuclear speckles - The EMBO Journal
Following cell entry, HIV-1 capsids enter the nucleus by passage through nuclear pores and reach nuclear speckles with subsequent uncoating of the reverse-transcribed genome and its integration into s...
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Jan Philipp Kreysing @jpkreysing.bsky.social · 06/11/2025
Exciting new paper from my colleague @deglushk.bsky.social in the @becklab.bsky.social! It introduces a fast, robust tool for measuring membrane thickness in tomograms #TeamTomo.
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Reposted by Jan Philipp Kreysing
Max Planck Institute of Biophysics @mpibp.bsky.social · 23/10/2025
Have you registered to the next EMBO Practical Course on In-situ structural biology by Cryo-FIB and Cryo-ET? 🧊 Join us in Frankfurt for hands-on training on cryo-techniques and networking with experts! 🔗 Apply by Dec 8, 2025: meetings.embo.org/event/26-in-... 📍 Frankfurt | 📆 April 12–20, 2026
Orange and green poster of the In-situ structural biology by Cryo-FIB and Cryo-ET in Frankfurt am Main, with EMBO logo. The poster promotes childcare grants, travel grants and that this is a sustainable event.
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Ricardo D. Righetto @lifeonthewedge.bsky.social · 23/10/2025
Our colleagues Vinith Kishore and Valentin Debarnot from the @ivandokmanic.bsky.social lab have come up with an amazing deep learning tool for denoising and filling the missing wedge in #cryoET data. I'm pleased to introduce Icecream🍧
biorxiv.org
Icecream: High-Fidelity Equivariant Cryo-Electron Tomography
Cryo-electron tomography (cryo-ET) visualizes 3D cellular architecture in near-native states. Recent deep-learning methods (CryoCARE, IsoNet, DeepDeWedge, CryoLithe) improve denoising and artifact cor...
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joe dobbs @joedobbs.bsky.social · 15/10/2025
Check out our preprint! With new molecular mechanisms, 140 subtomogram averages, and ~600 annotated cells under different conditions, we @embl.org were able to describe bacterial populations with in-cell #cryoET. And there’s a surprise at the end 🕵️ www.biorxiv.org/content/10.1... #teamtomo
Figure 1 from the preprint
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Jan Philipp Kreysing @jpkreysing.bsky.social · 10/10/2025
❓What if you could peek between your tilt series ❓ We are proud to introduce cryoTIGER -- deep-learning based tilt interpolation for enhanced reconstruction in cryo-ET. A great collaboration between Turoňová lab, @becklab.bsky.social, @hummerlab.bsky.social #teamtomo www.nature.com/articles/s42...
nature.com
cryoTIGER: deep-learning based tilt interpolation generator for enhanced reconstruction in cryo electron tomography - Communications Biology
Deep learning-based interpolation using cryoTIGER enhances angular sampling in cryoET, improving 3D reconstructions, particle localization, and structural recovery without increasing electron dose.
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Jan Philipp Kreysing @jpkreysing.bsky.social · 23/08/2025
More great cryo-ET benchmarking work from my colleagues Maarten Tuijtel, Tomáš Majtner, Beata Turoňová, & @becklab.bsky.social: Systematic study of how tilt increment choice affects downstream TM & STA. Preprint has the optimally balanced tilt increment. #TeamTomo www.biorxiv.org/content/10.1...
biorxiv.org
Optimal tilt-increment for cryo-ET
Cryo-electron tomography (cryo-ET) enables high-resolution, three-dimensional imaging of cellular structures in their native, frozen state. However, image quality is limited by a trade-off between ang...
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Reposted by Jan Philipp Kreysing
Max Planck Institute of Biophysics @mpibp.bsky.social · 18/08/2025
We’re hosting the @embo.org Practical Course on In-situ structural biology by CryoFIB and CryoET in April 2026! 🧬❄️ You can expect hands-on training, cutting-edge methods, and a chance to work alongside leading experts in structural biology. 🔗 Apply by Dec 8, 2025: meetings.embo.org/event/26-in-...
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Max Planck Institute of Biophysics @mpibp.bsky.social · 25/07/2025
AI for Cryo-ET 🌟 Our new paper presents a deep-learning framework that cleans up faulty tilt series in a more automated, precise and powerful way! 💪 Read more here: www.sciencedirect.com/science/arti...
sciencedirect.com
Automated removal of corrupted tilts in cryo-electron tomography
Cryo-electron tomography (cryo-ET) enables the visualization of macromolecular structures in their near-native cellular environment. However, acquired…
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Jan Philipp Kreysing @jpkreysing.bsky.social · 23/07/2025
New from my colleagues Markus Schreiber & Beata Turoňová: TANGO, an #opensource tool for more holistic spatial analysis of cryo-ET particles. It can clean or cluster particles, analyze lattices, and identify patterns. #TeamTomo www.biorxiv.org/content/10.1...
biorxiv.org
Twist and Scout: Analysis and Curation of Particles in Cryo-Electron Tomography Using TANGO
Cryo-electron tomography (cryo-ET) enables the visualization of cellular structures in near-native environments, but its potential for spatial analysis has been underutilized due to a lack of versatil...
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Reposted by Jan Philipp Kreysing
Philippe Van der Stappen @phaips.vd.st · 06/05/2025
Hey #TeamTomo, Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging? That's why @florentwaltz.bsky.social and I made this website! tomoguide.github.io Follow the thread 1 /🧵 #CryoET #CryoEM 🔬🧪
tomoguide.github.io
Welcome to TomoGuide
A step-by-step Cryo-ET guide
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Reposted by Jan Philipp Kreysing
Lorenz Lamm @lorenzlamm.bsky.social · 25/04/2025
🦠🧠 MemBrain update! 🧠🦠 We’ve updated our preprint! It now covers the full MemBrain v2 pipeline for end-to-end membrane analysis in #CryoET: segmentation, particle picking, and spatial statistics. 🔗 Preprint: doi.org/10.1101/2024... 🔗 Code: github.com/CellArchLab/... 🧵(1/6) #TeamTomo
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Jan Philipp Kreysing @jpkreysing.bsky.social · 12/04/2025
Looking for a tool to measure membrane thicknesses in tomograms (#TeamTomo)? Or curious about thickness differences within and across organelles? Check out my fellow @becklab.bsky.social PhD student @deglushk.bsky.social's excellent preprint: www.biorxiv.org/content/10.1...
biorxiv.org
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Jan Philipp Kreysing @jpkreysing.bsky.social · 11/04/2025
New preprint on 3D heterochromatin architecture in human cells! Great collab with @sergiocruzleon.bsky.social & @johannesbetz.bsky.social from @hummerlab.bsky.social, @marinalusic.bsky.social & the Turoňová lab. Many thanks to my supervisor @becklab.bsky.social. bioRxiv: tinyurl.com/3a74uanv 🧵👇
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Jan Philipp Kreysing @jpkreysing.bsky.social · 11/04/2025
Also, check out @sergiocruzleon.bsky.social's post for a cool video summary about our new heterochromatin preprint.
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Jan Philipp Kreysing @jpkreysing.bsky.social · 09/04/2025
Excited to share our latest work on nuclear pore complex scaffold integrity and its perturbation. Now out in Nature Cell Biology: rdcu.be/eg4i9 Great work by Reiya Taniguchi who just opened his own research group back in Japan! 🥳
rdcu.be
Nuclear pores safeguard the integrity of the nuclear envelope
Nature Cell Biology - Taniguchi et al. structurally analyse nuclear pore complex architecture in situ during differentiation, which is associated with mechanical constraints on the nuclear...
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Reposted by Jan Philipp Kreysing
bioRxivpreprint @biorxivpreprint.bsky.social · 15/03/2025
Automated Removal of Corrupted Tilts in Cryo-Electron Tomography www.biorxiv.org/content/10.1101/202…
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Beck Laboratory @becklab.bsky.social · 17/01/2025
Hello world!
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Max Planck Institute of Biophysics @mpibp.bsky.social · 17/01/2025
Fresh out of the press! ✨Check out our new paper on the violent entry of the HIV capsid into the nuclear pore — and how it cracks the gate! 🤯 💥 Incredible work from @becklab.bsky.social and @hummerlab.bsky.social 🤩 More here: www.biophys.mpg.de/2842024/hivcapsid-cracks-the-npc?c=2011019 🔗 #teamTOMO
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Jan Philipp Kreysing @jpkreysing.bsky.social · 17/01/2025
So happy that my main PhD project on HIV-1 nuclear entry is now out in Cell. I want to especially thank my supervisor Martin @becklab.bsky.social and our amazing collaborators @maziarheidari.bsky.social from @hummerlab.bsky.social, Vojtech Zila from the Kräusslich lab and many others.
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bioRxivpreprint @biorxivpreprint.bsky.social · 21/12/2024
cryoTIGER: Deep-Learning Based Tilt Interpolation Generator for Enhanced Reconstruction in Cryo Electron Tomography www.biorxiv.org/content/10.1101/202…
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Jan Philipp Kreysing @jpkreysing.bsky.social · 13/12/2024
Exciting times in HIV research and prevention! HIV capsid is a great drug target because it's not just a protective shell for the viral genome but also a key facilitator for HIV entering the nucleus via the nuclear pore (NPC).
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Max Planck Institute of Biophysics @mpibp.bsky.social · 12/12/2024
Celebrating Dr. Huaipeng Xing from #molecularsociology on successfully defending his #PhD! 👏🥳 He studied the visualization of protein synthesis and folding inside human cells by #cryoET #teamTOMO. Congrats, Huaipeng, and best wishes for your future! 🤩
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Max Planck Institute of Biophysics @mpibp.bsky.social · 12/12/2024
Do not miss our latest #cryoET work! 🕵️ Xing et al. present the dynamic architecture of TRiC in human cells! The study of this protein-folding chaperonin opens the door to understanding its dysfunction in diseases like cancer and neurodegeneration 🧠🧪 #teamTOMO @becklab.bsky.social
Chaperonin TRiC within human cells. The left panel displays a representative 3D map from a tomogram illustrating the spatial distribution of open and closed TRiC complexes in human cells. The top right panel highlights the interaction of PDCD5 with the CCT3-1-4 subunits of the open TRiC complex. The bottom right panel shows the closed TRiC complex forming clusters of two
particles.
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IMPRS on Cellular Biophysics @imprs-cbp.bsky.social · 11/12/2024
Are you already on track to apply to our #gradschool? 👣 This is a little map of our application process! We hope, you don´t get lost on the way 😊 If you want to start your #phdjourney with IMPRS-CBP #applynow Don’t miss the chance and apply by February 7th. 👉 imprs-cbp.mpg.de 👈 #imprs_cbp
Map of application process to IMPRS for Cellular Biophysics. Applications are open until February 7th, 2025. Interviews will take place from April 7th to 11th. The program will start on September 15th, 2025.
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IMPRS on Cellular Biophysics @imprs-cbp.bsky.social · 25/11/2024
Hello 🦋! We’re excited to announce that applications for our #PhDprogram open in TWO weeks! 🤯 Join our #IMPRS and take your first steps toward groundbreaking research in Cellular Biophysics. 📅 Mark your calendar & stay tuned: imprs-cbp.mpg.de #PhDPositions #GradSchool #MaxPlanckSociety
Fully funded PhD positions at the International Max Planck Research School on Cellular Biophysics. Apply online from December 8! Link in bio!
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Alexey Amunts @amunts.bsky.social · 25/11/2024
Faster and more accurate protein modeling with CryFold. By focusing on nearby points (Local Attention) and employing map masking, CryFold excels in generating models from challenging maps regions. It enables a more cost-efficient model building. 🧵 💾 github.com/SBQ-1999/Cry...
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